Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.2.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04532	0.912
27DAP/17DAP	0.97353	0.982
39DAP/27DAP	0.94878	0.67
41DAP/39DAP	1.31468	0.265
42DAP/41DAP	0.96125	1
43DAP/42DAP	0.96241	0.909
47DAP/43DAP	1.04433	0.825
52DAP/47DAP	1.52246	0.355
57DAP/52DAP	0.76814	0.627

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01153	1
17DAP/reference	1.04742	0.369
27DAP/reference	0.99422	0.797
39DAP/reference	1.0146	0.76
41DAP/reference	1.01062	1
42DAP/reference	0.98992	0.398
43DAP/reference	1.00074	1
47DAP/reference	0.97485	0.279
52DAP/reference	0.99971	0.73
57DAP/reference	0.95239	0.221

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84801	0.121
27DAP/17DAP	1.14137	0.533
39DAP/27DAP	0.97917	0.844
41DAP/39DAP	1.08754	0.79
42DAP/41DAP	1.08551	0.916
43DAP/42DAP	1.10575	0.134
47DAP/43DAP	0.95484	0.774
52DAP/47DAP	0.96388	0.746
57DAP/52DAP	1.03704	0.941
57DAP/7DAP	1.01311	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95483	0.27
17DAP/reference	0.92798	0.108
27DAP/reference	0.97052	0.248
39DAP/reference	0.90044	0.014
41DAP/reference	0.80096	0.036
42DAP/reference	0.86815	0.136
43DAP/reference	0.80707	0.013
47DAP/reference	0.94936	0.066
52DAP/reference	0.82498	0.033
57DAP/reference	0.78843	0.015

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05526	0.289
17DAP/reference	1.08163	0.285
27DAP/reference	0.99681	0.735
39DAP/reference	0.9836	0.455
41DAP/reference	1.01222	1
42DAP/reference	0.9156	0.169
43DAP/reference	1.00792	1
47DAP/reference	1.01889	0.965
52DAP/reference	0.98836	0.537
57DAP/reference	1.05609	0.477

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91473	0.065
17DAP/reference	0.96429	0.224
27DAP/reference	0.85357	0.038
39DAP/reference	0.91727	0.046
41DAP/reference	0.93457	0.037
42DAP/reference	1.00272	1
43DAP/reference	0.89583	0.032
47DAP/reference	0.95727	0.286
52DAP/reference	0.82475	0.22
57DAP/reference	0.84044	0.071

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98609	1
26DAP/20DAP	0.78819	0.317
34DAP/26DAP	1.0322	1
51DAP/34DAP	0.86309	0.498
52DAP/51DAP	0.991	1
53DAP/52DAP	1.05541	0.845
55DAP/53DAP	1.06015	0.876
57DAP/55DAP	1.07409	0.818
62DAP/57DAP	2.13877
68DAP/62DAP	1.44948
68DAP/14DAP	N/A	N/A

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96489	0.52

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.62987	0.058
Mature Green Tomato/Ripe Tomato	1.00081	0.835
Immature Eggplant/Mature Eggplant	0.92086	0.366
Ripe Pepper/Ripe Tomato	0.45843	0.224
Mature Eggplant/Ripe Tomato	0.72626	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05753	0.877
1-1-2/M82	0.93504	0.344
12-2/M82	1.02926	1
12-4/M82	0.94122	1
1-3/M82	1.05106	1
2-1-1/M82	1.18795	0.689
2-1/M82	1.30305	1
2-6/M82	1.01225	1
3-2/M82	1.0035
4-1-1/M82	1.00062	1
4-1/M82	0.9401	1
4-3-2/M82	0.77734	0.487
4-3/M82	0.86687	0.551
5-3/M82	1.0532	1
6-2/M82	0.95631	1
6-3/M82	0.97794	0.982
7-1/M82	1.02409	1
7-2/M82	0.94547	0.527
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.15179	0.584
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.92048	1
IL12-4/WTpooled	1.16633	0.695
IL1-4/WTpooled	1.06966
WT/WTpooled	1.01414	1

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	1.36011	0.699

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04212	0.921
DC3000/delta hrp 6h	1.16398	1
DC3000/delta hrp 12h	0.94766	1
DC3000/delta hrp 24h	0.94485	0.642

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.09206	0.476
DC3000 delta B/DC3000 delta AB	0.78679	0.093

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.8455	0.328
Exp 36h	1.07851	1
Exp 60h	0.80697	0.522

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	1.01068	1
Var 0h	0.69837	0.98
Var 12h I row2-row1	1.0131	0.613
Var 12h NI row2-row1	1.0392	1
Var 36h I row2-row1	1.06003	1
Var 36h NI row2-row1	0.9629	0.645
Var 60h I row2-row1	1.05679
Var 60h NI row2-row1	1.06861	0.904
Time course 0hI-0hNI	0.93708	0.516
Time course 12hI-12hNI	0.96951	0.54
Time course 36hI-36hNI	0.83808	0.123
Time course 60hI-60hNI	0.99063	1

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	0.99269	0.931
transgenic ySAMdc/azygous control (breaker)	0.73776	0.142
transgenic ySAMdc/azygous control (red)	0.88808	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0135	0.287

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.96609	0.789

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.29191	0.105
Manapal/WT (break)	0.90023	0.297
Manapal/WT (red)	0.76662	0.181